tbuckley/cabot-search huggingface dataset:
Guideline-Directed Medical Therapy Tolerability in Patients With Heart Failure and Mitral Regurgitation
Authors: Zachary L. Cox, Sandip K. Zalawadiya, Matheus Simonato, Bjorn Redfors, Zhipeng Zhou, Lak Kotinkaduwa, Michael R. Zile, James E. Udelson, D. Scott Lim, Paul A. Grayburn, Michael J. Mack, William T. Abraham, Gregg W. Stone, JoAnn Lindenfeld
Journal: JACC Heart Failure (2023)
Robot-assisted Radical Cystectomy with Orthotopic Neobladder Reconstruction: Techniques and Functional Outcomes in Males
Authors: Alberto Martini, Ugo Giovanni Falagario, Antonio Russo, Laura S. Mertens, Luca Di Gianfrancesco, Carlo Andrea Bravi, Jonathan Vollemaere, Muhammad Abdeen, Mikolaj Mendrek, Eirik Kjøbli, Stephan Buse, Carl Wijburg, Alae Touzani, Guillaume Ploussard, Alessandro Antonelli, Laura Schwenk, Jan Ebbing, Nikhil Vasdev, Gabriel Froelicher, Hubert John, Abdullah Erdem Canda, Mevlana Derya Balbay, Marcel Stoll, Sebastian Edeling, Jorn H. Witt, Sami-Ramzi Leyh-Bannurah, Stefan Siemer, Michael Stoeckle, Alexander Mottrie, Frederiek D'Hondt, Alessandro Crestani, Angelo Porreca, Hendrik van der Poel, Karel Decaestecker, Richard Gaston, N. Peter Wiklund, Abolfazl Hosseini
Journal: European Urology (2023)

Little is known regarding functional outcomes after robot-assisted radical cystectomy (RARC) and intracorporeal neobladder (ICNB) reconstruction. To report on urinary continence (UC) and erectile function (EF) at 12 mo after RARC and ICNB reconstruction and investigate predictors of these outcomes. We used data from a multi-institutional database of patients who underwent RARC and ICNB reconstruction for bladder cancer. The cystoprostatectomy sensu stricto followed the conventional steps. ICNB reconstruction was performed at the physician's discretion according to the Studer/Wiklund, S pouch, Gaston, vescica ileale Padovana, or Hautmann technique. The techniques are detailed in the video accompanying the article. The outcomes measured were UC and EF at 12 mo. A total of 732 male patients were identified with a median age at diagnosis of 64 yr (interquartile range 58–70). The ICNB reconstruction technique was Studer/Wiklund in 74%, S pouch in 1.5%, Gaston in 19%, vescica ileale Padovana in 1.5%, and Hautmann in 4% of cases. The 12-mo UC rate was 86% for daytime and 66% for nighttime continence, including patients who reported the use of a safety pad (20% and 32%, respectively). The 12-mo EF rate was 55%, including men who reported potency with the aid of phosphodiesterase type 5 inhibitors (24%). After adjusting for potential confounders, neobladder type was not associated with UC. Unilateral nerve-sparing (odds ratio [OR] 3.85, 95% confidence interval [CI] 1.88–7.85; p < 0.001) and bilateral nerve-sparing (OR 6.25, 95% CI 3.55–11.0; p < 0.001), were positively associated with EF, whereas age (OR 0.93, 95% CI 0.91–0.95; p < 0.001) and an American Society of Anesthesiologists score of 3 (OR 0.46, 95% CI 0.25–0.89; p < 0.02) were inversely associated with EF. RARC and ICNB reconstruction are generally associated with good functional outcomes in terms of UC. EF is highly affected by the degree of nerve preservation, age, and comorbidities. We investigated functional outcomes after robot-assisted removal of the bladder in terms of urinary continence and erectile function. We found that, in general, patients have relatively good functional outcomes at 12 months after surgery.
Three-dimensional Virtual Models of the Kidney with Colored Perfusion Regions: A New Algorithm-based Tool for Optimizing the Clamping Strategy During Robot-assisted Partial Nephrectomy
Authors: Daniele Amparore, Federico Piramide, Enrico Checcucci, Paolo Verri, Sabrina De Cillis, Alberto Piana, Gabriele Volpi, Giovanni Busacca, Marco Colombo, Cristian Fiori, Francesco Porpiglia
Journal: European Urology (2023)
A ‘one-stop-shop’ point-of-care hepatitis C RNA testing intervention to enhance treatment uptake in a reception prison: The PIVOT study
Authors: Yumi Sheehan, Evan B. Cunningham, Amanda Cochrane, Marianne Byrne, Tracey Brown, Colette McGrath, Lise Lafferty, Nicodemus Tedla, Gregory J. Dore, Andrew R. Lloyd, Jason Grebely
Journal: Journal of Hepatology (2023)
Neutrophil aging exacerbates high fat diet induced metabolic alterations
Authors: Andrea Baragetti, Lorenzo Da Dalt, Annalisa Moregola, Monika Svecla, Ottavia Terenghi, Elisa Mattavelli, Lucia Nicolini De Gaetano, Patrizia Uboldi, Alberico Luigi Catapano, Giuseppe Danilo Norata
Journal: Metabolism (2023)

Background High fat diet (HFD) chronically hyper-activates the myeloid cell precursors, but whether it affects the neutrophil aging is unknown. Purpose We characterized how HFD impacts neutrophil aging, infiltration in metabolic tissues and if this aging, in turn, modulates the development of metabolic alterations. We immunophenotyped neutrophils and characterized the metabolic responses in physiology (wild-type mice, WT) and in mice with constitutively aged neutrophils (MRP8 driven conditional deletion of CXCR4; herein CXCR4fl/flCre+) or with constitutively fresh neutrophils (MRP8 driven conditional deletion of CXCR2; CXCR2fl/flCre+), following 20 weeks of HFD feeding (45 % kcal from fat). Findings After 20 weeks HFD, the gluco-metabolic profile of CXCR4fl/flCre+ mice was comparable to that of WT mice, while CXCR2fl/flCre+ mice were protected from metabolic alterations. CXCR4fl/flCre+ infiltrated more, but CXCR2fl/flCre+ neutrophils infiltrated less, in liver and visceral adipose tissue (VAT). As consequence, while CXCR4fl/flCre+ resulted into hepatic "suicidal" neutrophils extracellular traps (NETs) and altered immune cell architecture in VAT, CXCR2fl/flCre+ promoted proresolutive hepatic NETs and reduced accumulation of pro-inflammatory macrophages in VAT. In humans, higher plasma levels of Cxcl12 (CXCR4 ligand) correlated with visceral adiposity while higher levels of Cxcl1 (the ligand of CXCR2) correlated with indexes of hepatic steatosis, adiposity and metabolic syndrome. Conclusions Neutrophil aging might contribute to the development of HFD induced metabolic disorders.
Urinary DKK3 as a biomarker for short-term kidney function decline in children with chronic kidney disease: an observational cohort study
Authors: Thimoteus Speer, Stefan J Schunk, Tamim Sarakpi, David Schmit, Martina Wagner, Ludger Arnold, Stephen Zewinger, Karolis Azukaitis, Aysun Bayazit, Lukasz Obrycki, Ipek Kaplan Bulut, Ali Duzova, Anke Doyon, Bruno Ranchin, Salim Caliskan, Jerome Harambat, Alev Yilmaz, Harika Alpay, Francesca Lugani, Ayse Balat, Klaus Arbeiter, Germana Longo, Anette Melk, Uwe Querfeld, Elke Wühl, Otto Mehls, Danilo Fliser, Franz Schaefer
Journal: The Lancet Child & Adolescent Health (2023)
The HIV care continuum for sexually active transgender women in three metropolitan municipalities in South Africa: findings from a biobehavioural survey 2018–19
Authors: Allanise Cloete, Musawenkosi Mabaso, Helen Savva, L Leigh-Ann van der Merwe, Dhee Naidoo, Zaino Petersen, Zamakayise Kose, Jacqueline Mthembu, Sizulu Moyo, Donald Skinner, Sean Jooste, Ian E Fellows, Ray W Shiraishi, Shaalula L Mwandingi, Leickness C Simbayi
Journal: The Lancet HIV (2023)
Adalimumab in conjunction with surgery compared with adalimumab monotherapy for hidradenitis suppurativa: A Randomized Controlled Trial in a real-world setting
Authors: Pim Aarts, Johanna C. van Huijstee, Hessel H. van der Zee, Martijn B.A. van Doorn, Kelsey R. van Straalen, Errol P. Prens
Journal: Journal of the American Academy of Dermatology (2023)

Adalimumab, the only biologic registered for hidradenitis suppurativa, shows clinical response in up to 60% of patients, leaving many patients in need for other treatment options such as surgery.To compare the clinical effectiveness of adalimumab combined with surgery vs adalimumab monotherapy in patients with moderate to severe hidradenitis suppurativa.A pragmatic Randomized Controlled Trial was performed from August 2018 to July 2022. Primary outcome was the difference in mean International Hidradenitis Suppurativa Severity Score System reduction after 12 months of treatment with the difference in mean Dermatology Life Quality Index reduction as a key secondary outcome.Thirty-one patients were included per arm. The mean International Hidradenitis Suppurativa Severity Score System at baseline was 23.9 ± 10.7 in the surgery group and 20.9 ± 16.4, in the monotherapy group. After 12 months of treatment the surgery group had a significantly greater reduction in International Hidradenitis Suppurativa Severity Score System compared with the monotherapy group (-19.1 ± 11.3 vs -7.8 ± 11.8, P < .001). Moreover, the surgery group showed a greater reduction in Dermatology Life Quality Index after treatment compared with the monotherapy group (-8.2 ± 6.2 vs -4 ± 7.7, P = .02).The study follow-up was too short to assess surgical recurrence rates.Combining adalimumab with surgery resulted in greater clinical effectiveness and improved quality of life after 12 months in patients with moderate to severe hidradenitis suppurativa.
Decoding the regulatory roles of non-coding RNAs in cellular metabolism and disease
Authors: Yuru Zong, Xuliang Wang, Bing Cui, Xiaowei Xiong, Andrew Wu, Chunru Lin, Yaohua Zhang
Journal: Molecular Therapy (2023)

Non-coding RNAs, including long non-coding RNAs (lncRNAs), microRNAs (miRNAs), and circular RNAs (circRNAs), are being studied extensively in a variety of fields. Their roles in metabolism have received increasing attention in recent years but are not yet clear. The regulation of glucose, fatty acid, and amino acid metabolism is an imperative physiological process that occurs in living organisms and takes part in cancer and cardiovascular diseases. Here, we summarize the important roles played by non-coding RNAs in glucose metabolism, fatty acid metabolism, and amino acid metabolism, as well as the mechanisms involved. We also summarize the therapeutic advances for non-coding RNAs in diseases such as obesity, cardiovascular disease, and some metabolic diseases. Overall, non-coding RNAs are indispensable factors in metabolism and have a significant role in the three major metabolisms, which may be exploited as therapeutic targets in the future. Non-coding RNAs, including long non-coding RNAs (lncRNAs), microRNAs (miRNAs), and circular RNAs (circRNAs), are being studied extensively in a variety of fields. Their roles in metabolism have received increasing attention in recent years but are not yet clear. The regulation of glucose, fatty acid, and amino acid metabolism is an imperative physiological process that occurs in living organisms and takes part in cancer and cardiovascular diseases. Here, we summarize the important roles played by non-coding RNAs in glucose metabolism, fatty acid metabolism, and amino acid metabolism, as well as the mechanisms involved. We also summarize the therapeutic advances for non-coding RNAs in diseases such as obesity, cardiovascular disease, and some metabolic diseases. Overall, non-coding RNAs are indispensable factors in metabolism and have a significant role in the three major metabolisms, which may be exploited as therapeutic targets in the future.
Molecular characterization of Candida auris outbreak isolates in Qatar from patients with COVID-19 reveals the emergence of isolates resistant to three classes of antifungal drugs
Authors: Fatma Ben Abid, Husam Salah, Sathyavathi Sundararaju, Lamya Dalil, Ayman H. Abdelwahab, Sarah Salameh, Emad B. Ibrahim, Muna A. Almaslmani, Patrick Tang, Andres Perez-Lopez, Clement K.M. Tsui
Journal: Clinical Microbiology and Infection (2023)

During the COVID-19 pandemic in Qatar, many patients who were severely ill were colonized and infected by Candida auris, an invasive multidrug-resistant yeast pathogen that spreads through nosocomial transmission within healthcare facilities. Here, we investigated the molecular epidemiology of these C. auris isolates and the mechanisms associated with antifungal drug resistance.Whole genomes of 76 clinical C. auris isolates, including 65 from patients with COVID-19 collected from March 2020 to June 2021, from nine major hospitals were sequenced on Illumina NextSeq. Single nucleotide polymorphisms were used to determine their epidemiological patterns and mechanisms for antifungal resistance. The data were compared with those published prior to the COVID-19 pandemic from 2018 to 2020 in Qatar.Genomic analysis revealed low genetic variability among the isolates from patients with and without COVID-19, confirming a clonal outbreak and ongoing dissemination of C. auris among various healthcare facilities. Based on antifungal susceptibility profiles, more than 70% (22/28) of isolates were resistant to both fluconazole and amphotericin B. Variant analysis revealed the presence of multi-antifungal resistant isolates with prominent amino acid substitutions: Y132F in ERG11 and V704L in CDR1 linked to reduced azole susceptibility and the emergence of echinocandin resistance samples bearing mutations in FKS1 in comparison with pre-COVID-19 pandemic samples. One sample (CAS109) was resistant to three classes of antifungal drugs with a unique premature stop codon in ERG3 and novel mutations in CDR2, which may be associated with elevated amphotericin B and azole resistance.Candida auris isolates from patients with COVID-19 and from most patient samples without COVID-19 in Qatar were highly clonal. The data demonstrated the emergence of multidrug-resistant strains that carry novel mutations linked to enhanced resistance to azoles, echinocandins, and amphotericin B. Understanding the epidemiology and drug resistance will inform the infection control strategy and drug therapy.
DeepSTI: Towards tensor reconstruction using fewer orientations in susceptibility tensor imaging
Authors: Zhenghan Fang, Kuo-Wei Lai, Peter van Zijl, Xu Li, Jeremias Sulam
Journal: Medical Image Analysis (2023)

Susceptibility tensor imaging (STI) is an emerging magnetic resonance imaging technique that characterizes the anisotropic tissue magnetic susceptibility with a second-order tensor model. STI has the potential to provide information for both the reconstruction of white matter fiber pathways and detection of myelin changes in the brain at mm resolution or less, which would be of great value for understanding brain structure and function in healthy and diseased brain. However, the application of STI in vivo has been hindered by its cumbersome and time-consuming acquisition requirement of measuring susceptibility induced MR phase changes at multiple head orientations. Usually, sampling at more than six orientations is required to obtain sufficient information for the ill-posed STI dipole inversion. This complexity is enhanced by the limitation in head rotation angles due to physical constraints of the head coil. As a result, STI has not yet been widely applied in human studies in vivo. In this work, we tackle these issues by proposing an image reconstruction algorithm for STI that leverages data-driven priors. Our method, called DeepSTI, learns the data prior implicitly via a deep neural network that approximates the proximal operator of a regularizer function for STI. The dipole inversion problem is then solved iteratively using the learned proximal network. Experimental results using both simulation and in vivo human data demonstrate great improvement over state-of-the-art algorithms in terms of the reconstructed tensor image, principal eigenvector maps and tractography results, while allowing for tensor reconstruction with MR phase measured at much less than six different orientations. Notably, promising reconstruction results are achieved by our method from only one orientation in human in vivo, and we demonstrate a potential application of this technique for estimating lesion susceptibility anisotropy in patients with multiple sclerosis.
Biomolecular map of albumin identifies signatures of severity and early mortality in acute liver failure
Authors: Neha Sharma, Sushmita Pandey, Manisha Yadav, Babu Mathew, Vasundhra Bindal, Nupur Sharma, Gaurav Tripathi, Sadam H. Bhat, Abhishak Gupta, Rakhi Maiwall, Shvetank Sharma, Shiv Kumar Sarin, Jaswinder Singh Maras
Journal: Journal of Hepatology (2023)
Emerging strategies of engineering retinal organoids and organoid-on-a-chip in modeling intraocular drug delivery: Current progress and future perspectives
Authors: Jiaheng Yu, Yuqi Yin, Yubing Leng, Jingcheng Zhang, Chunyan Wang, Yanyun Chen, Xiaorui Li, Xudong Wang, Hui Liu, Yulong Liao, Yishan Jin, Yihan Zhang, Keyu Lu, Kehao Wang, Xiaofei Wang, Lizhen Wang, Fuyin Zheng, Zhongze Gu, Yinghui Li, Yubo Fan
Journal: Advanced Drug Delivery Reviews (2023)
Randomized Phase II Trial Comparing Bevacizumab Plus Carboplatin and Paclitaxel With Carboplatin and Paclitaxel Alone in Previously Untreated Locally Advanced or Metastatic Non-Small-Cell Lung Cancer
Authors: David H. Johnson, Louis Fehrenbacher, William F. Novotny, Roy S. Herbst, John J. Nemunaitis, David M. Jablons, Corey J. Langer, Russell F. DeVore, Jacques Gaudreault, Lisa A. Damico, Eric Holmgren, Fairooz Kabbinavar
Journal: Journal of Clinical Oncology (2023)

To investigate the efficacy and safety of bevacizumab plus carboplatin and paclitaxel in patients with advanced or recurrent non-small-cell lung cancer.
Depression Associated With Hormonal Contraceptive Use as a Risk Indicator for Postpartum Depression
Authors: Søren Vinther Larsen, Anders Pretzmann Mikkelsen, Øjvind Lidegaard, Vibe Gedso Frokjaer
Journal: JAMA Psychiatry (2023)

Importance Hormonal sensitivity may contribute to the risk of depression in some women, as observed during the premenstrual, postpartum, and perimenopausal phases, and when initiating hormonal contraception (HC). However, little evidence exists to support that such depressive episodes are linked across the reproductive life span. Objective To determine whether prior depression associated with HC initiation is coupled with a higher risk of postpartum depression (PPD) than prior depression not associated with HC initiation. Design, Setting, and Participants This cohort study used Danish health registry data collected from January 1, 1995, through December 31, 2017, and analyzed from March 1, 2021, through January 1, 2023. All women living in Denmark born after 1978 with their first delivery between January 1, 1996, and June 30, 2017, were eligible for inclusion; 269 354 met these criteria. Women were then excluded if they had never used HC or if they had a depressive episode before 1996 or within 12 months prior to delivery. Exposures Prior depression associated with vs not associated with HC initiation, ie, if developed within 6 months after start of an HC exposure or not. Depression was defined as a hospital diagnosis of depression or filling a prescription for antidepressant medication. Main Outcomes and Measures Crude and adjusted odds ratios (ORs) were calculated for the incidence of PPD defined as the development of depression within 6 months after first delivery. Results Of 188 648 first-time mothers, 5722 (3.0%) (mean [SD] age, 26.7 [3.9] years) had a history of depression associated with initiation of HC use, and 18 431 (9.8%) (mean [SD] age, 27.1 [3.8] years) had a history of depression not associated with the initiation of HC. Women with HC-associated depression had a higher risk of PPD than women with prior non–HC-associated depression (crude OR, 1.42 [95% CI, 1.24-1.64]; adjusted OR, 1.35 [95% CI, 1.17-1.56]). Conclusions and Relevance These findings suggest that a history of HC-associated depression may be associated with a higher risk of PPD, supporting that HC-associated depression may indicate PPD susceptibility. This finding offers a novel strategy in clinical PPD risk stratification and points to the existence of a hormone-sensitive subgroup of women.
Drug Doesn’t Lead to Better Outcomes After Cesarean Deliveries
Authors: Emily Harris
Journal: JAMA (2023)

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Social determinants of cognitive outcomes in survivors of pediatric brain tumors treated with conformal radiation therapy
Authors: Taylor N Mule', Jason Hodges, Shengjie Wu, Yimei Li, Jason M Ashford, Thomas E Merchant, Heather M Conklin
Journal: Neuro-Oncology (2023)

Abstract Background Social determinants of health including parental occupation, household income, and neighborhood environment are predictors of cognitive outcomes among healthy and ill children; however, few pediatric oncology studies have investigated this relationship. This study utilized the Economic Hardship Index (EHI) to measure neighborhood-level social and economic conditions to predict cognitive outcomes among children treated for brain tumors (BT) with conformal radiation therapy (RT). Methods Two hundred and forty-one children treated on a prospective, longitudinal, phase II trial of conformal photon RT (54–59.4 Gy) for ependymoma, low-grade glioma, or craniopharyngioma (52% female, 79% white, age at RT = 7.76 ± 4.98 years) completed serial cognitive assessments (intelligence quotient [IQ], reading, math, and adaptive functioning) for ten years. Six US census tract-level EHI scores were calculated for an overall EHI score: unemployment, dependency, education, income, crowded housing, and poverty. Established socioeconomic status (SES) measures from the extant literature were also derived. Results Correlations and non-parametric tests revealed EHI variables share modest variance with other SES measures. Income, unemployment, and poverty overlapped most with individual SES measures. Linear mixed models, accounting for sex, age at RT, and tumor location, revealed EHI variables predicted all cognitive variables at baseline and change in IQ and math over time, with EHI overall and poverty most consistent predictors. Higher economic hardship was associated with lower cognitive scores. Conclusions Neighborhood-level measures of socioeconomic conditions can help inform understanding of long-term cognitive and academic outcomes in survivors of pediatric BT. Future investigation of poverty’s driving forces and the impact of economic hardship on children with other catastrophic diseases is needed.
Exploring Racialized Economic Segregation and Reinjury and Violence Perpetration Among Survivors of Violent Injuries
Authors: Meera Kotagal, Deepika Nehra, Rochelle Dicker
Journal: JAMA Network Open (2023)

Elizabeth C. Pino, PhD; Sara F. Jacoby, PhD, MPH; Elizabeth Dugan, MSW, LICSW; Jonathan Jay, DrPH, JD